Deciphering mechanisms of enhanced-retarded oxygen diffusion in doped Si

We study enhanced/retarded diffusion of oxygen in doped silicon by means of first principle calculations. We evidence that the migration energy of oxygen dimers cannot be significantly affected by strain, doping type, or concentration. We attribute the enhanced oxygen diffusion in p-doped silicon to reduced monomer migration energy and the retarded oxygen diffusion in Sb-doped to monomer trapping close to a dopant site. These two mechanisms can appear simultaneously for a given dopant leading to contradictory experimental results. More generally, our findings cast a new light on phenomena involving oxygen diffusion: precipitation, thermal donors formation, and light induced degradation. © 2013 AIP Publishing LLC

Specification of an extensible and portable file format for electronic structure and crystallographic data

In order to allow different software applications, in constant evolution, to interact and exchange data, flexible file formats are needed. A file format specification for different types of content has been elaborated to allow communication of data for the software developed within the European Network of Excellence "NANOQUANTA", focusing on first-principles calculations of materials and nanosystems. It might be used by other software as well, and is described here in detail. The format relies on the NetCDF binary input/output library, already used in many different scientific communities, that provides flexibility as well as portability accross languages and platforms. Thanks to NetCDF, the content can be accessed by keywords, ensuring the file format is extensible and backward compatible

Axl and MerTK regulate synovial inflammation and are modulated by IL-6 inhibition in rheumatoid arthritis.

The TAM tyrosine kinases, Axl and MerTK, play an important role in rheumatoid arthritis (RA). Here, using a unique synovial tissue bioresource of patients with RA matched for disease stage and treatment exposure, we assessed how Axl and MerTK relate to synovial histopathology and disease activity, and their topographical expression and longitudinal modulation by targeted treatments. We show that in treatment-naive patients, high AXL levels are associated with pauci-immune histology and low disease activity and inversely correlate with the expression levels of pro-inflammatory genes. We define the location of Axl/MerTK in rheumatoid synovium using immunohistochemistry/fluorescence and digital spatial profiling and show that Axl is preferentially expressed in the lining layer. Moreover, its ectodomain, released in the synovial fluid, is associated with synovial histopathology. We also show that Toll-like-receptor 4-stimulated synovial fibroblasts from patients with RA modulate MerTK shedding by macrophages. Lastly, Axl/MerTK synovial expression is influenced by disease stage and therapeutic intervention, notably by IL-6 inhibition. These findings suggest that Axl/MerTK are a dynamic axis modulated by synovial cellular features, disease stage and treatment

The CECAM Electronic Structure Library and the modular software development paradigm

First-principles electronic structure calculations are very widely used thanks to the many successful software packages available. Their traditional coding paradigm is monolithic, i.e., regardless of how modular its internal structure may be, the code is built independently from others, from the compiler up, with the exception of linear-algebra and message-passing libraries. This model has been quite successful for decades. The rapid progress in methodology, however, has resulted in an ever increasing complexity of those programs, which implies a growing amount of replication in coding and in the recurrent re-engineering needed to adapt to evolving hardware architecture. The Electronic Structure Library (\esl) was initiated by CECAM (European Centre for Atomic and Molecular Calculations) to catalyze a paradigm shift away from the monolithic model and promote modularization, with the ambition to extract common tasks from electronic structure programs and redesign them as free, open-source libraries. They include ``heavy-duty'' ones with a high degree of parallelisation, and potential for adaptation to novel hardware within them, thereby separating the sophisticated computer science aspects of performance optimization and re-engineering from the computational science done by scientists when implementing new ideas. It is a community effort, undertaken by developers of various successful codes, now facing the challenges arising in the new model. This modular paradigm will improve overall coding efficiency and enable specialists (computer scientists or computational scientists) to use their skills more effectively. It will lead to a more sustainable and dynamic evolution of software as well as lower barriers to entry for new developers

Single artificial atoms in silicon emitting at telecom wavelengths

Given its unrivaled potential of integration and scalability, silicon is likely to become a key platform for large-scale quantum technologies. Individual electron-encoded artificial atoms either formed by impurities or quantum dots have emerged as a promising solution for silicon-based integrated quantum circuits. However, single qubits featuring an optical interface needed for large-distance exchange of information have not yet been isolated in such a prevailing semiconductor. Here we show the isolation of single optically-active point defects in a commercial silicon-on-insulator wafer implanted with carbon atoms. These artificial atoms exhibit a bright, linearly polarized single-photon emission at telecom wavelengths suitable for long-distance propagation in optical fibers. Our results demonstrate that despite its small bandgap (~ 1.1 eV) a priori unfavorable towards such observation, silicon can accommodate point defects optically isolable at single scale, like in wide-bandgap semiconductors. This work opens numerous perspectives for silicon-based quantum technologies, from integrated quantum photonics to quantum communications and metrology

Deciphering mechanisms of enhanced-retarded oxygen diffusion in doped Si

We study enhanced/retarded diffusion of oxygen in doped silicon by means of first principle calculations. We evidence that the migration energy of oxygen dimers cannot be significantly affected by strain, doping type, or concentration. We attribute the enhanced oxygen diffusion in p-doped silicon to reduced monomer migration energy and the retarded oxygen diffusion in Sb-doped to monomer trapping close to a dopant site. These two mechanisms can appear simultaneously for a given dopant leading to contradictory experimental results. More generally, our findings cast a new light on phenomena involving oxygen diffusion: precipitation, thermal donors formation, and light induced degradation. © 2013 AIP Publishing LLC

Deciphering mechanisms of enhanced-retarded oxygen diffusion in doped Si

We study enhanced/retarded diffusion of oxygen in doped silicon by means of first principle calculations. We evidence that the migration energy of oxygen dimers cannot be significantly affected by strain, doping type, or concentration. We attribute the enhanced oxygen diffusion in p-doped silicon to reduced monomer migration energy and the retarded oxygen diffusion in Sb-doped to monomer trapping close to a dopant site. These two mechanisms can appear simultaneously for a given dopant leading to contradictory experimental results. More generally, our findings cast a new light on phenomena involving oxygen diffusion: precipitation, thermal donors formation, and light induced degradation. © 2013 AIP Publishing LLC

Sharing electronic structure and crystallographic data with ETSF_IO

This program has been imported from the CPC Program Library held at Queen's University Belfast (1969-2018) Abstract We present a library of routines whose main goal is to read and write exchangeable files (NetCDF file format) storing electronic structure and crystallographic information. It is based on the specification agreed inside the European Theoretical Spectroscopy Facility (ETSF). Accordingly, this library is nicknamed ETSF_IO. The purpose of this article is to give both an overview of the ETSF_IO library and a closer look at its usage. ETSF_IO is designed to be robust and easy to use, close to Fort... Title of program: ETSF_IO Catalogue Id: AEBG_v1_0 Nature of problem Store and exchange electronic structure data and crystallographic data independently of the computational platform, language and generating software. Versions of this program held in the CPC repository in Mendeley Data AEBG_v1_0; ETSF_IO; 10.1016/j.cpc.2008.05.00

Deciphering mechanisms of enhanced-retarded oxygen diffusion in doped Si

We study enhanced/retarded diffusion of oxygen in doped silicon by means of first principle calculations. We evidence that the migration energy of oxygen dimers cannot be significantly affected by strain, doping type, or concentration. We attribute the enhanced oxygen diffusion in p-doped silicon to reduced monomer migration energy and the retarded oxygen diffusion in Sb-doped to monomer trapping close to a dopant site. These two mechanisms can appear simultaneously for a given dopant leading to contradictory experimental results. More generally, our findings cast a new light on phenomena involving oxygen diffusion: precipitation, thermal donors formation, and light induced degradation. © 2013 AIP Publishing LLC

Sharing electronic structure and crystallographic data with ETSF_IO

We present a library of routines whose main goal is to read and write exchangeable files (NetCDF file format) storing electronic structure and crystallographic information. It is based on the specification agreed inside the European Theoretical Spectroscopy Facility (ETSF). Accordingly, this library is nicknamed ETSF_IO. The purpose of this article is to give both an overview of the ETSF_IO library and a closer look at its usage. ETSF_IO is designed to be robust and easy to use, close to Fortran read and write routines. To facilitate its adoption, a complete documentation of the input and output arguments of the routines is available in the package, as well as six tutorials explaining in detail various possible uses of the library routines